Author Archives: pm286

experiment and theory – the liberation of data and source

Antony Williams on the ChemSpider blog has paid tribute to NMRShiftDB. I have copied this in full and comment later on how theory and experiment test each other: Open Source Data, Testing Quality and Returning Value – Interactions with NMRSHIFTDB … Continue reading

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Chemical Blogosphere

For those who denigrate the blogosphere I reply that the chemical blogosphere is an excellent example of a coherent, productive, communal social organism. The members find their ecological niche, and where necessary feed off each others’ electronic secretions. ChemBark (Paul) … Continue reading

Posted in blueobelisk, semanticWeb | 4 Comments

Latest Blue Obelisk Greasemonkey

Noel O’Boyle posts: Add quotes from PostGenomic and Chemical Blogspace to journal Greasemonkey is a Firefox extension that allows you to rewrite the HTML of a webpage on-the-fly. Pedro Beltrão was the first to think of adding a link to … Continue reading

Posted in Uncategorized | 3 Comments

OAI-ORE

I am delighted to be able to write about OAI-ORE – on whose advisory board I am. I also had the chance recently to have a long discussion with two of the people driving it, Carl Lagoze and Herbert Van … Continue reading

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Repositories or Lists of Open Molecules

I am looking for lists (or repositories) of small molecules with connection tables (or machine-parsable molecular structures) which are Open. By Open I mean that anyone can, in principle download, copy or clone part or all of the site, re-use … Continue reading

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The SWORD is mightier than the pen

I am just relaxing in a hotel in Redmond, WA, US after two week’s very hard work instead of going downtown Seattle and shopping (which I hate unless it is for Obelisks). So the posts are going in all directions … Continue reading

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BioMOO and BlueObelisk Cemetery

Jean Clause Bradley posts in Nature Island Review Joanna Scott just wrote a nice little review of what is going on at Nature Island (slurl) on Nature’s Nascent blog since her return from the American Chemical Society meeting in Chicago. … Continue reading

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Another puzzle

I have blogged about the broken state of chemical information and the lack of semantics in current commercial chemical software and drawing tools. This is exemplified by the amount of incorrect structures received by publishers (and I have talked to … Continue reading

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Pubchem Pigeons and Parrots

I ‘ve pent some of the last two days talking with Steve Bryant who runs The PubChem Project. People often think (and I’ve been guilty of this) that there is a lot of junk in Pubchem (although the proportion is … Continue reading

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Corrections and Retractions from the GreaseMonkey

In Correction/Retraction Notice Noel O’Blog (Noel was in our Centre until recently) shows how the Blue Obelisk Greasemonkey can show a richer view of the chemical literature. The greasemonkey, developed by Noel and others and reported in Blue Obelisk mailing … Continue reading

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